From owner-svn-ports-all@freebsd.org Sat Nov 3 23:16:50 2018 Return-Path: Delivered-To: svn-ports-all@mailman.ysv.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2610:1c1:1:606c::19:1]) by mailman.ysv.freebsd.org (Postfix) with ESMTP id CC6FF10EC04C; Sat, 3 Nov 2018 23:16:50 +0000 (UTC) (envelope-from jwb@FreeBSD.org) Received: from mxrelay.nyi.freebsd.org (mxrelay.nyi.freebsd.org [IPv6:2610:1c1:1:606c::19:3]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (Client CN "mxrelay.nyi.freebsd.org", Issuer "Let's Encrypt Authority X3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 462EA705FB; Sat, 3 Nov 2018 23:16:50 +0000 (UTC) (envelope-from jwb@FreeBSD.org) Received: from repo.freebsd.org (repo.freebsd.org [IPv6:2610:1c1:1:6068::e6a:0]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (Client did not present a certificate) by mxrelay.nyi.freebsd.org (Postfix) with ESMTPS id 27D67204B8; Sat, 3 Nov 2018 23:16:50 +0000 (UTC) (envelope-from jwb@FreeBSD.org) Received: from repo.freebsd.org ([127.0.1.37]) by repo.freebsd.org (8.15.2/8.15.2) with ESMTP id wA3NGnRJ073631; Sat, 3 Nov 2018 23:16:49 GMT (envelope-from jwb@FreeBSD.org) Received: (from jwb@localhost) by repo.freebsd.org (8.15.2/8.15.2/Submit) id wA3NGn8F073630; Sat, 3 Nov 2018 23:16:49 GMT (envelope-from jwb@FreeBSD.org) Message-Id: <201811032316.wA3NGn8F073630@repo.freebsd.org> X-Authentication-Warning: repo.freebsd.org: jwb set sender to jwb@FreeBSD.org using -f From: "Jason W. Bacon" Date: Sat, 3 Nov 2018 23:16:49 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r483953 - in head/biology/bowtie: . files X-SVN-Group: ports-head X-SVN-Commit-Author: jwb X-SVN-Commit-Paths: in head/biology/bowtie: . files X-SVN-Commit-Revision: 483953 X-SVN-Commit-Repository: ports MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-Rspamd-Queue-Id: 462EA705FB X-Spamd-Result: default: False [-0.11 / 200.00]; ARC_NA(0.00)[]; FROM_HAS_DN(0.00)[]; RCPT_COUNT_THREE(0.00)[3]; TO_MATCH_ENVRCPT_ALL(0.00)[]; MIME_GOOD(-0.10)[text/plain]; TO_DN_NONE(0.00)[]; HAS_XAW(0.00)[]; R_SPF_SOFTFAIL(0.00)[~all]; DMARC_NA(0.00)[FreeBSD.org]; RCVD_COUNT_THREE(0.00)[4]; MX_GOOD(-0.01)[cached: mx1.FreeBSD.org]; FROM_EQ_ENVFROM(0.00)[]; R_DKIM_NA(0.00)[]; RCVD_TLS_LAST(0.00)[] X-Rspamd-Server: mx1.freebsd.org X-BeenThere: svn-ports-all@freebsd.org X-Mailman-Version: 2.1.29 Precedence: list List-Id: SVN commit messages for the ports tree List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Sat, 03 Nov 2018 23:16:51 -0000 Author: jwb Date: Sat Nov 3 23:16:49 2018 New Revision: 483953 URL: https://svnweb.freebsd.org/changeset/ports/483953 Log: biology/bowtie: Revert previous commit with missing log message Deleted: head/biology/bowtie/files/patch-ebwt.h Modified: head/biology/bowtie/Makefile Modified: head/biology/bowtie/Makefile ============================================================================== --- head/biology/bowtie/Makefile Sat Nov 3 22:54:39 2018 (r483952) +++ head/biology/bowtie/Makefile Sat Nov 3 23:16:49 2018 (r483953) @@ -1,9 +1,9 @@ # $FreeBSD$ PORTNAME= bowtie +PORTVERSION= 1.1.2 +PORTREVISION= 6 DISTVERSIONPREFIX= v -DISTVERSION= 1.1.2 -PORTREVISION= 7 CATEGORIES= biology MAINTAINER= jwb@FreeBSD.org @@ -13,14 +13,13 @@ LICENSE= ART10 # May also work on other 64-bit platforms, but untested ONLY_FOR_ARCHS= amd64 - -USES= gmake perl5 python:run shebangfix # FIXME: bowtie-align intermittently dumps core when compiled with clang # GCC 4.2 does not provide good performance USE_GCC= yes +USES= gmake perl5 python:run shebangfix USE_PERL5= run - -SHEBANG_FILES= scripts/*.pl bowtie bowtie-build bowtie-inspect +SHEBANG_FILES= scripts/*.pl bowtie bowtie-build \ + bowtie-inspect USE_GITHUB= yes GH_ACCOUNT= BenLangmead